miRNA display CGI


Results 1 - 20 of 28 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
9633 3' -55.1 NC_002577.1 + 107750 0.66 0.947245
Target:  5'- -cGACGGGCCguuacguuUCACCGUguugcgucucCACACUg -3'
miRNA:   3'- ccCUGCUCGGau------AGUGGCA----------GUGUGGa -5'
9633 3' -55.1 NC_002577.1 + 62015 0.66 0.947245
Target:  5'- cGGGCGcGCC-GUCGCCGUCcugGCAUa- -3'
miRNA:   3'- cCCUGCuCGGaUAGUGGCAG---UGUGga -5'
9633 3' -55.1 NC_002577.1 + 104882 0.66 0.942838
Target:  5'- cGGACGAcGCCgcggAUCGUCACGCa- -3'
miRNA:   3'- cCCUGCU-CGGauagUGGCAGUGUGga -5'
9633 3' -55.1 NC_002577.1 + 122480 0.66 0.933325
Target:  5'- cGGACGGGCgUUcgCACC-UUGCGCCa -3'
miRNA:   3'- cCCUGCUCG-GAuaGUGGcAGUGUGGa -5'
9633 3' -55.1 NC_002577.1 + 11133 0.66 0.933325
Target:  5'- cGGACGGGCgUUcgCACC-UUGCGCCa -3'
miRNA:   3'- cCCUGCUCG-GAuaGUGGcAGUGUGGa -5'
9633 3' -55.1 NC_002577.1 + 72982 0.66 0.933325
Target:  5'- uGGGAauUGAGCCg---ACCGUUugACCc -3'
miRNA:   3'- -CCCU--GCUCGGauagUGGCAGugUGGa -5'
9633 3' -55.1 NC_002577.1 + 11385 0.67 0.928215
Target:  5'- cGGGGCGAacGC--GUCAgCGuUCGCACCg -3'
miRNA:   3'- -CCCUGCU--CGgaUAGUgGC-AGUGUGGa -5'
9633 3' -55.1 NC_002577.1 + 123027 0.67 0.928215
Target:  5'- cGGGAUGAGUCUcggaCGCgCGUCGguCCg -3'
miRNA:   3'- -CCCUGCUCGGAua--GUG-GCAGUguGGa -5'
9633 3' -55.1 NC_002577.1 + 122229 0.67 0.928215
Target:  5'- cGGGGCGAacGC--GUCAgCGuUCGCACCg -3'
miRNA:   3'- -CCCUGCU--CGgaUAGUgGC-AGUGUGGa -5'
9633 3' -55.1 NC_002577.1 + 159205 0.67 0.922869
Target:  5'- aGGGAUGccccggagcGCCUGUCGgUGUC-CGCCg -3'
miRNA:   3'- -CCCUGCu--------CGGAUAGUgGCAGuGUGGa -5'
9633 3' -55.1 NC_002577.1 + 138133 0.67 0.922869
Target:  5'- aGGGAUGccccggagcGCCUGUCGgUGUC-CGCCg -3'
miRNA:   3'- -CCCUGCu--------CGGAUAGUgGCAGuGUGGa -5'
9633 3' -55.1 NC_002577.1 + 57986 0.67 0.916716
Target:  5'- aGGGCGGGCCUcguuugaGUCGC-GUCuCGCCc -3'
miRNA:   3'- cCCUGCUCGGA-------UAGUGgCAGuGUGGa -5'
9633 3' -55.1 NC_002577.1 + 158889 0.67 0.904802
Target:  5'- -cGGCGGGCgCcAUCACCGUCcucggaaacugcuGCGCCg -3'
miRNA:   3'- ccCUGCUCG-GaUAGUGGCAG-------------UGUGGa -5'
9633 3' -55.1 NC_002577.1 + 138448 0.67 0.904802
Target:  5'- -cGGCGGGCgCcAUCACCGUCcucggaaacugcuGCGCCg -3'
miRNA:   3'- ccCUGCUCG-GaUAGUGGCAG-------------UGUGGa -5'
9633 3' -55.1 NC_002577.1 + 37908 0.68 0.892626
Target:  5'- cGGGACGcgcGCCUAUU-CCGUgACuGCCg -3'
miRNA:   3'- -CCCUGCu--CGGAUAGuGGCAgUG-UGGa -5'
9633 3' -55.1 NC_002577.1 + 153807 0.68 0.88589
Target:  5'- -cGACgGAGUCUGcuuuauucuUCugCGUCGCGCCg -3'
miRNA:   3'- ccCUG-CUCGGAU---------AGugGCAGUGUGGa -5'
9633 3' -55.1 NC_002577.1 + 92660 0.69 0.856775
Target:  5'- aGGACGAGCaggucaauUCGCCGUUACcGCUg -3'
miRNA:   3'- cCCUGCUCGgau-----AGUGGCAGUG-UGGa -5'
9633 3' -55.1 NC_002577.1 + 129863 0.69 0.852122
Target:  5'- aGGGCGAGCCUAUCcACUGgcaacgagcgagaaCACAgCUa -3'
miRNA:   3'- cCCUGCUCGGAUAG-UGGCa-------------GUGUgGA- -5'
9633 3' -55.1 NC_002577.1 + 3751 0.69 0.852122
Target:  5'- aGGGCGAGCCUAUCcACUGgcaacgagcgagaaCACAgCUa -3'
miRNA:   3'- cCCUGCUCGGAUAG-UGGCa-------------GUGUgGA- -5'
9633 3' -55.1 NC_002577.1 + 76684 0.69 0.832816
Target:  5'- aGGGAUaaGAGCgCUGaaGCCGUCGCguGCCg -3'
miRNA:   3'- -CCCUG--CUCG-GAUagUGGCAGUG--UGGa -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.